Write a Book on Neuropathology

Copy and paste from prior book draft… figure out tables

summary(cars)
##      speed           dist       
##  Min.   : 4.0   Min.   :  2.00  
##  1st Qu.:12.0   1st Qu.: 26.00  
##  Median :15.0   Median : 36.00  
##  Mean   :15.4   Mean   : 42.98  
##  3rd Qu.:19.0   3rd Qu.: 56.00  
##  Max.   :25.0   Max.   :120.00
summary(iris)
##   Sepal.Length    Sepal.Width     Petal.Length    Petal.Width   
##  Min.   :4.300   Min.   :2.000   Min.   :1.000   Min.   :0.100  
##  1st Qu.:5.100   1st Qu.:2.800   1st Qu.:1.600   1st Qu.:0.300  
##  Median :5.800   Median :3.000   Median :4.350   Median :1.300  
##  Mean   :5.843   Mean   :3.057   Mean   :3.758   Mean   :1.199  
##  3rd Qu.:6.400   3rd Qu.:3.300   3rd Qu.:5.100   3rd Qu.:1.800  
##  Max.   :7.900   Max.   :4.400   Max.   :6.900   Max.   :2.500  
##        Species  
##  setosa    :50  
##  versicolor:50  
##  virginica :50  
##                 
##                 
##

Spiffy Plot

You can also embed plots, for example:

Note that the echo = FALSE parameter was added to the code chunk to prevent printing of the R code that generated the plot.

Make sure to comment out your code, but what role comments in RMD documents?

Still figuring out this GIT stuff in RStudio.

More to come.

Hey, should I write the GATA3 paper in RMD? Small changes are not worth committing, since a committed document is the “gold standard,” the “display copy,” if you like. Nonetheless, the habit of committing is important.

Why use the git interface in RStudio rather than the terminal in RStudio? Doesn’t seem to add much, and it keeps me slightly further from git…

How do references work in Rmd? Here’s a reference dropped in with citr(1,2). I finally got citr installed when I realized that my R version was not the latest, and was preventing the loading of some dependent packages. Dumb, I know.

YAML specifications including output, bibliography, and CSL are important for inserting citations.

library(tidyverse)
ggplot(data = mpg) + 
  geom_point(mapping = aes(x = displ, y = hwy, color = class))

A little more text goes here.

Images can also be inserted as below.

Images will build up, so are placed in a folder that I set up in the Rproj folder.

References:

1. D&D basic rules: Dungeon master’s basic rules version 0.5. 2018.

2. D&D basic rules: Player’s basic rules version 0.3. 2018.